› 2dq3

X-ray diffraction
3Å resolution

Crystal structure of aq_298

Released:
DOI: 10.2210/pdb2dq3/pdb
PDB entry 2dq3 coloured by chain, front view.
PDB entry 2dq3 coloured by chain, side view.
PDB entry 2dq3 coloured by chain, top view.
Source organism: Aquifex aeolicus VF5
Entry authors: Itoh Y, Sekine S, Yokoyama S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Function and Biology Details

Reaction catalysed: 
ATP + L-serine + tRNA(Sec) = AMP + diphosphate + L-seryl-tRNA(Sec)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-130357 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Serine--tRNA ligase Chains: A, B
Molecule details ›
Chains: A, B
Length: 425 amino acids
Theoretical weight: 49.65 KDa
Source organism: Aquifex aeolicus VF5
Expression system: Escherichia coli
UniProt:
  • Canonical: O66647 (Residues: 1-425; Coverage: 100%)
Gene names: aq_298, serS
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand SSA 2 x SSA
1 modified residue:
Ligand MSE 6 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P41
Unit cell:
a: 119.057Å b: 119.057Å c: 80.66Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.219 0.219 0.297
Expression system: Escherichia coli

Quick links